Here are my added thoughts, (i kept track of number of clubs in parentheses)
From Europe:
16 clubs from Russia (16)
the 17 other clubs from Turkey join Galatasaray (33)
Romania's Steaua, National, Rapid, and Dinamo (37)
Croatia's Dinamo Zagreb and Hajduk Split (39)
AEK from Greece (40)
Hungary's Ferencvarosi & MTK (42)
Israel's Maccabi Haifa & Maccabi Tel-Aviv (44)
Serbian Clubs Partizan & Red Star (46)
Ukraine's Dynamo Kyiv, Dnipro & Shakhtar (49)
From South America:
Chile's Cobreloa & Colo Colo (51)
Peru's Alianza Lima, Cienciano, Sporting Cristal & Universitad (55)
Uruguay's Penarol & Nacional (57)
Bolivia's Bolivar & The Strongest (59)
Colombia's Once Caldas, Atletico Nacional, Deportivo Cali, Independiente Medallin & America Cali (64)
Ecuador's LDU de Quito & SC Barcelona (66)
Paraguay's Olimpia, Cerro Porteno, Libertad & 12 de Octubre (70)
Venezuela's Deportivo Tachira & Union Atletico Maracaibo (72)
the 18 other Argentine Clubs in the top flight in 2005 (90)
From the other parts of the world:
Japan's J-League, 18 more clubs (108)
Qatar League (where some recognizable names play) 10 more clubs (118)
Saudi Arabian Club and Asian Champions League winners Al-Ittihad (119)
Also from the Saudi League: AL-Ahly, Al Nasr & Al-Hilal (122)
2003 Asian Champions League winners Al-Ain from UAE (123)
Thailand's BEC Tero, losing finalists in 03 (124)
(in case you were wondering 2004 runners up are already in the game, in the K-League)
Orlando Pirates & Kaiser Cheifs from So. Africa (126)
The A-League from the US, i think it has 16 clubs (142)
I think I covered all club bases, we can add some more Brazial clubs, like Juventue, and fill the other 200 spaces with International sides.